Insights into chromosomal evolution and sex determination of Pseudobagrus ussuriensis (Bagridae, Siluriformes) based on a chromosome-level genome
文献类型： 外文期刊
作者： Zhu, Chuankun 1 ; Liu, Haiyang 2 ; Pan, Zhengjun 1 ; Cheng, Lei 3 ; Sun, Yanhong 4 ; Wang, Hui 1 ; Chang, Guoliang 1 ; Wu, Nan 1 ; Ding, Huaiyu 1 ; Zhao, Haitao 1 ; Zhang, Lei 5 ; Yu, Xiangsheng 6 ;
作者机构： 1.Huaiyin Normal Univ, Jiangsu Collaborat Innovat Ctr Reg Modern Agr & E, Jiangsu Key Lab Ecoagr Biotechnol Hongze Lake, Jiangsu Engn Lab Breeding Special Aquat Organisms, Huaian 223300, Peoples R China
2.Chinese Acad Fishery Sci, Pearl River Fisheries Res Inst, Key Lab Trop & Subtrop Fishery Resources Applicat, Minist Agr & Rural Affairs, Guangzhou 510380, Peoples R China
3.Chinese Acad Fishery Sci, Heilongjiang Fisheries Res Inst, Key Lab Freshwater Aquat Biotechnol & Breeding, Minist Agr & Rural Affairs, Harbin 150070, Peoples R China
4.Wuhan Aquaculture Sci Res Inst, Wuhan 430207, Peoples R China
5.Chinese Acad Sci, Huaian Sub Ctr Inst Hydrobiol, Key Lab Fishery Sustainable Dev & Water Environm, Huaian 223002, Peoples R China
6.Huaian Fisheries Tech Guidance Stn, Huaian 223001, Peoples R China
关键词： Pseudobagrus ussuriensis; whole-genome sequencing; chromosome evolution; sex-determining region; sex chromosome
期刊名称：DNA RESEARCH （ 影响因子：4.477； 五年影响因子：5.358 ）
ISSN： 1340-2838
年卷期： 2022 年 29 卷 4 期
页码：
收录情况： SCI
摘要： Pseudobagrus ussuriensis is an aquaculture catfish with significant sexual dimorphism. In this study, a chromosome-level genome with a size of 741.97 Mb was assembled for female P. ussuriensis. A total of 26 chromosome-level contigs covering 97.34% of the whole-genome assembly were obtained with an N50 of 28.53 Mb and an L50 of 11. A total of 24,075 protein-coding genes were identified, with 91.54% (22,039) genes being functionally annotated. Based on the genome assembly, four chromosome evolution clusters of catfishes were identified and the formation process of P. ussuriensis chromosomes was predicted. A total of 55 sex-related quantitative trait loci (QTLs) with a phenotypic variance explained value of 100% were located on chromosome 8 (chr08). The QTLs and other previously identified sex-specific markers were located in a sex-determining region of 16.83 Mb (from 6.90 to 23.73 Mb) on chr08, which was predicted as the X chromosome. The sex-determining region comprised 554 genes, with 135 of which being differently expressed between males and females/pseudofemales, and 16 candidate sex-determining genes were screened out. The results of this study provided a useful chromosome-level genome for genetic, genomic and evolutionary studies of P. ussuriensis, and also be useful for further studies on sex-determination mechanism analysis and sex-control breeding of this fish.
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